organizing header/footer/enqueue-scripts.php calls

Hey Guys,

So I have been using Foundation 5 and JointsWP start theme to build websites. I start off with just using Foundation and build out the structure in HTML/CSS then I port it over to JointsWP. Most of the sites I have done have worked with no issues but this one seems to be causing some issues.

I think my problem lies in where i’m calling all the JS files in my footer/header/ and the enqueue-scripts.php file that JointsWP comes with. I have tested a number of combinations things but can’t see to remove the errors the console is throwing up and also can’t get my sticky header to stop glitching out in chrome without breaking the mobile nav. I know this has something to do with all the different things i’m calling in the footer and enqueue-scripts.php file because I can get either one or the other working but not both, also my modal is broken to and I think that has something to do with it.

Im hoping someone can give me some organization tips, take a look at what i’m calling and maybe let me know what should go where and when combining the two (foundation 5 and JointsWP) what can be removed?

And maybe take a look at what I have now and tell me what’s wrong?

Footer

<script src="<?php bloginfo('template_directory'); ?>/assets/js/vendor/jquery.js" type="text/javascript"></script>
    <script src="https://cdnjs.cloudflare.com/ajax/libs/foundation/5.5.3/js/foundation.min.js" type="text/javascript"></script>
    <script src="<?php bloginfo('template_directory'); ?>/assets/royalslider/jquery.royalslider.min.js" type="text/javascript"></script>
    <script type="text/javascript">
	  $(document).foundation();
	             $(".royalSlider").royalSlider({
		            // options go here
		            imageScaleMode: 'fill',
		            autoHeight: true,
		            transitionType: 'fade',
		            controlNavigation: 'none',
		            navigateByClick: true,
		            imageScalePadding: 0,
		            imageAlignCenter: false,
		            keyboardNavEnabled: true,
		            keyboardNavEnabled: true,
		            navigateByClick: true,
		            sliderDrag: true,
	        });
    </script>
    <?php wp_footer(); ?>

Header

<link rel="stylesheet" href="<?php bloginfo('template_directory'); ?>/assets/royalslider/royalslider.css" type="text/css">
    <link rel="stylesheet" href="<?php bloginfo('template_directory'); ?>/assets/royalslider/skins/default/rs-default.css" type="text/css">
    <link rel="stylesheet" href="<?php bloginfo('template_directory'); ?>/assets/css/custom.css" type="text/css"><!-- JS -->
	<!-- JS -->
    <script src="<?php bloginfo('template_directory'); ?>/assets/vendor/modernizr/modernizr.js" type="text/javascript"></script>

enqueue-scripts.php

<?php
function joints_scripts_and_styles() {
  global $wp_styles; // Call global $wp_styles variable to add conditional wrapper around ie stylesheet the WordPress way
  if (!is_admin()) {
    $theme_version = wp_get_theme()->Version;

	// Removes WP version of jQuery
	wp_deregister_script('jquery');

	// Loads jQuery from vendor Files
    wp_enqueue_script( 'jquery', get_template_directory_uri() . '/assets/vendor/foundation/js/vendor/jquery.js', array(), '2.1.3', true );

    // Adding scripts file in the footer
    wp_enqueue_script( 'site-js', get_template_directory_uri() . '/assets/js/scripts.js', array( 'jquery' ), '', true );

    // Normalize from vendor files
    wp_enqueue_style( 'normalize-css', get_template_directory_uri() . '/assets/vendor/foundation/css/normalize.min.css', array(), '', 'all' );      

    // Adding Foundation styles
    wp_enqueue_style( 'foundation-css', get_template_directory_uri() . '/assets/vendor/foundation/css/foundation.min.css', array(), '', 'all' );

    // Register main stylesheet
    wp_enqueue_style( 'site-css', get_template_directory_uri() . '/assets/css/style.css', array(), '', 'all' );

    // Comment reply script for threaded comments
    if ( is_singular() AND comments_open() AND (get_option('thread_comments') == 1)) {
      wp_enqueue_script( 'comment-reply' );
    }
  }
}
add_action('wp_enqueue_scripts', 'joints_scripts_and_styles', 999);
?>

Thanks for any help guys!

[Moderator Note: No bumping, thank you.]